ZNF257

zinc finger protein 257, the group of Zinc fingers C2H2-type

Basic information

Region (hg38): 19:22052430-22091480

Links

ENSG00000197134 ∙ NCBI:113835 ∙ OMIM:606957 ∙ HGNC:13498 ∙ Uniprot:Q9Y2Q1 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the ZNF257 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ZNF257 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous						0
missense			29			29
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	29	0	0

Variants in ZNF257

This is a list of pathogenic ClinVar variants found in the ZNF257 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
19-22072810-G-A		not specified	Uncertain significance (Aug 21, 2024)
19-22072823-T-G		not specified	Uncertain significance (Jun 11, 2021)
19-22073477-G-C		not specified	Uncertain significance (Jun 11, 2021)
19-22073481-C-T		not specified	Uncertain significance (Dec 04, 2024)
19-22073483-A-G		not specified	Uncertain significance (Nov 21, 2022)
19-22073495-A-G		not specified	Uncertain significance (Aug 14, 2023)
19-22073507-G-C		not specified	Uncertain significance (Feb 22, 2023)
19-22088003-C-T		not specified	Uncertain significance (Oct 08, 2024)
19-22088007-G-T		not specified	Uncertain significance (Dec 03, 2024)
19-22088040-A-T		not specified	Uncertain significance (May 18, 2022)
19-22088041-A-T		not specified	Uncertain significance (Feb 22, 2024)
19-22088097-G-A		not specified	Uncertain significance (Aug 08, 2022)
19-22088114-G-C		not specified	Uncertain significance (Dec 14, 2022)
19-22088190-G-A		not specified	Uncertain significance (Jan 04, 2022)
19-22088196-A-C		not specified	Uncertain significance (Sep 26, 2024)
19-22088237-C-T		not specified	Uncertain significance (Nov 29, 2021)
19-22088244-T-C		not specified	Uncertain significance (May 20, 2024)
19-22088252-A-G		not specified	Uncertain significance (Jul 06, 2024)
19-22088282-T-C		not specified	Uncertain significance (Oct 01, 2024)
19-22088360-G-A		not specified	Uncertain significance (Nov 27, 2024)
19-22088369-G-A		not specified	Uncertain significance (Dec 18, 2023)
19-22088479-C-A		not specified	Uncertain significance (Aug 14, 2024)
19-22088489-C-A		not specified	Uncertain significance (Nov 27, 2023)
19-22088523-A-G		not specified	Uncertain significance (Nov 11, 2024)
19-22088553-G-A		not specified	Uncertain significance (Dec 09, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ZNF257	protein_coding	protein_coding	ENST00000594947	4	39029

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0189	0.748	125695	1	27	125723	0.000111

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.240	306	294	1.04	0.0000142	3717
Missense in Polyphen		60	63.757	0.94107		976
Synonymous	0.859	88	98.9	0.890	0.00000437	974
Loss of Function	0.808	3	4.94	0.608	2.10e-7	58

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000872	0.000800
Ashkenazi Jewish	0.00	0.00
East Asian	0.000166	0.000163
Finnish	0.00	0.00
European (Non-Finnish)	0.0000266	0.0000264
Middle Eastern	0.000166	0.000163
South Asian	0.000272	0.000261
Other	0.000163	0.000163

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May be involved in transcriptional regulation.
• Pathway: Vitamin D Receptor Pathway;Gene expression (Transcription);Generic Transcription Pathway;RNA Polymerase II Transcription (Consensus)

Intolerance Scores

• loftool: 0.731
• rvis_EVS: 1.42
• rvis_percentile_EVS: 94.92

Haploinsufficiency Scores

• pHI: 0.277
• hipred: N
• hipred_score: 0.112

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0719

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Gene ontology

• Biological process: regulation of transcription, DNA-templated;regulation of transcription by RNA polymerase II
• Cellular component: nucleus
• Molecular function: DNA-binding transcription factor activity, RNA polymerase II-specific;DNA binding;zinc ion binding